GWAS
Title: Hōʻike ka holoʻokoʻa-genome resequencing i ke kumu Brassica napus a me ka genetic loci i komo i kona hoʻomaikaʻi ʻana.
Nūpepa: Nature Communications
NGS |WGS |Ke hoomau nei |GWAS |Palapala |RNAseq |Brassica napus |Evolution |ʻO ka home
Ma kēia noiʻi ʻana, hāʻawi ʻo Biomarker Technologies i nā lawelawe ma ka hoʻonohonoho ʻana o NGS, a me ke kākoʻo ʻenehana i ka loiloi bioinformatics ma ka ʻikepili sequencing.
Kāpae
Brassica napus(rapeseed) he hua ʻaila koʻikoʻi a he kumu hoʻohālike maikaʻi loa no ka noiʻi ʻana i nā kaʻina hana o ka polyploid speciation, evolution a me ke koho ʻana.Eia nō naʻe, ʻaʻole ʻike mau ʻia nā ʻano holoholona hihiu a i ʻole nā mea hāʻawi ʻai ʻia i nā mākua a me nā genes i kōkua i ka home a me ka hoʻomaikaʻi ʻana i ka rapeseed.
Nā mea a me nā ʻano hana
Mea Hana:588B. napusi komo i loko o kēia haʻawina, me 466 mai Asia, 102 mai ʻEulopa, 13 mai ʻAmelika ʻĀkau, a me 7 mai Australia.Ma muli o nā moʻolelo maʻamau ulu, ua māhele ʻia kēia mau mea i ʻekolu ecotypes;puna (86 komo), hooilo (74 komo), a semi-hooilo (428 komo).
Ke kaʻina ʻana:ʻAwelika ma kahi o.5× (mai 3.37× a i 7.71×)
Papahana kaʻina:Illumina Hiseq 4000
Hana ʻikepili:4.03 Tb ʻikepili maʻemaʻe
Kāhea ʻia ʻo SNP:BWA + GATK.Ua loaʻa iā 5,294,158 SNPs a me 1,307,151 InDels.
Nā hualoaʻa
Ke kumu o B. napus
B. napusUa ulu mai kahi subgenome mai ke kupuna mai o ka turnip ʻEulopa.He hanana hoʻoheheʻe gene mai ʻEulopa turnip i kaB. napus Ua loaʻa kahi subgenome ~ 106-1170 makahiki aku nei.B. napusUa ulu paha ka C subgenome mai ka kupuna maʻamau o kēia mau ʻohana.ʻO ke kupuna oB. napusua hoʻokaʻawale ʻia mai ke kupuna maʻamau o nā ʻano ʻano B. oleracea ʻehā, me ke kahe ʻana o ka moʻo hou i lokoB. napus~108–898 makahiki aku nei.B. napusHe kumu paʻakikī ko C subgenome ma mua o A Subgenome.Hoʻokumu ʻia kahi bottleneck ikaika ma nā subgenome ʻelua i ka wāB. napushoʻomohala ʻana.ʻO ka hoʻoilo a me ka semi-hoʻoiloB. napusecotypes diverged ~ 60 makahiki aku nei, oiai ka hooilo a me ka punaB. napushoʻokaʻawale ~ 416 makahiki aku nei, a me ka aila a me ka ʻaila ʻoleB. napushoʻokaʻawale ~ 277 makahiki aku nei.
Fig. 2 Ka heluna kanaka o 588 B. napus komo a me 199 o B. rapa komo.
Fig. 3 Ka heluna kanaka o 588 B. napus komo a me 119 o B. oleracea komo.
Nā hōʻailona koho a me nā haʻawina hui ākea Genome.
I ka wā mua o ka hoʻomaikaʻi ʻana (FSI), ʻoi aku ka nui o nā ʻano genetic i nalowale i loko o ka subgenome B. napus C ma mua o ka subgenome A.Ua emi ka hoʻokaʻawale genetic i ka wā o ka FSI ma mua o ka lua o ka hoʻomaikaʻi ʻana (SSI).Ua hoʻonui ʻia nā Genes i nā wahi hōʻailona koho SSI i ka hoʻomanawanui koʻikoʻi, hoʻomohala a me nā ala metabolic.He 60 loci i pili nui me 10 mau hi'ohi'ona, me 5 i pili i ka hua hua, 3 i ka lō'ihi silique, 4 i ka aila, a me 48 i ka maika'i o ka hua.
Fig. 4 Ka nānā 'ana o Genome-ākea a me nā hō'ike no nā wahi i koho 'ia i ka wā o ka SSI o B. napus.
Ka hoʻopili palapala
ʻO ka ʻikepili RNAseq o 11 mau kiko mai kahi kiʻekiʻe-ʻaila-maʻiʻo a me ka lua-haʻahaʻa cultivar a me kahi haʻahaʻa-ʻaila-maʻiʻo a me ka lua-kiʻekiʻe cultivar ike genes pili i ka glucosinolate biosynthetic kaʻina hana i nui loa-i hōʻike 'ia.
Fig. 5 Nānā o ka hoʻoponopono manawa pua ma lalo o ke koho ʻana i ka hoʻomaikaʻi ʻana o ka ecotype o B. napus
Kūkākūkā
Hāʻawi kēia haʻawina i kumu waiwai no ka hoʻomaopopo ʻana i ke kumu a me ka mōʻaukala holomua oB. napusa e hoʻomaʻamaʻa i ka wehe ʻana i nā kumu genetic o nā ʻano paʻakikī agronomic koʻikoʻi.ʻO nā SNP koʻikoʻi e pili ana i nā ʻano like ʻole, nā hōʻailona koho a me nā genes moho e hāʻawi nui i ka wā e hiki mai ana, ʻoi aku ka maikaʻi o ka hoʻomaikaʻi ʻana i ka hua, ka maikaʻi o ka hua, ka ʻaila ʻaila, a me ka hoʻololi ʻana o kēia hua allopolyploid hou a me kona ʻohana.
Kuhikuhi
Hōʻike ka holoʻokoʻa-genome resequencing i ke kumu Brassica napus a me ka genetic loci i komo i kāna hoʻomaikaʻi ʻana [J].Nature Communications, 2019, 10(1).
Nūhou a me nā mea nui manaʻo e kaʻana like i nā hihia kūleʻa hou loa me Biomarker Technologies, ka hopu ʻana i nā hoʻokō ʻepekema hou a me nā ʻenehana kaulana i hoʻohana ʻia i ka wā o ke aʻo ʻana.
Ka manawa hoʻouna: Jan-05-2022